The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.
Total Genus |
87
|
sequence length |
267
|
structure length |
267
|
Chain Sequence |
AGIMRDHIINLLKEGKRIDDRGFEDYRPIEIEVGVIEKAEGSALVKLGSTQVLVGIKTSLGEPFPDTPNMGVMTTNVELVPLASPTFEPGPPDERAIELARVIDRGIRESKALNLEKMVIVPGKIVRVVFIDVHVLDHDGNLMDAIGIAAIAALLNARVPKVRYNEETGEVETLDETEPLPVEKIPVPVTFAKIGNILVVDPSLDEELVMDGKITITTDETGHISAVQKSEGGAFKLEEVMYAVETAFKKAEEIRKLILEAVEKAKQ
|
The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Insights into the mechanism of progressive RNA degradation by the archaeal exosome.
pubmed doi rcsb |
| molecule keywords |
10-mer poly(A)
|
| molecule tags |
Hydrolase/hydrolase/rna
|
| source organism |
Pyrococcus abyssi
|
| total genus |
87
|
| structure length |
267
|
| sequence length |
267
|
| ec nomenclature |
ec
3.1.13.-: |
| pdb deposition date | 2007-04-25 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| B | PF01138 | RNase_PH | 3' exoribonuclease family, domain 1 |
| B | PF03725 | RNase_PH_C | 3' exoribonuclease family, domain 2 |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 2-Layer Sandwich | Ribosomal Protein S5; domain 2 | GHMP Kinase, N-terminal domain |
#chains in the Genus database with same CATH superfamily 2BA1 G; 4NBQ A; 2NN6 A; 2C37 A; 4OO1 F; 2C37 B; 2PO2 B; 3GCM A; 4OO1 C; 4IFD C; 2PNZ B; 5JEA F; 2WNR A; 1UDN A; 5C0X F; 5K36 E; 2C39 A; 4BA1 B; 5C0X C; 2WP8 A; 4OO1 D; 2BA0 D; 2WP8 B; 2JEB A; 3GLL A; 3DD6 A; 5JEA D; 5C0X D; 3M7N G; 3CDI A; 2JEB B; 4IFD F; 1R6M A; 1UDS A; 2NN6 B; 2C38 A; 3HKM A; 3M85 G; 4OO1 A; 1UDQ A; 2PO1 A; 3B4T A; 2NN6 E; 1OYP A; 5JEA A; 2WNR B; 5C0X A; 5K36 F; 4IFD D; 1R6L A; 2C39 B; 4BA2 A; 5JEA B; 5C0X B; 5K36 C; 2BA1 D; 2JE6 A; 4BA2 B; 1OYR A; 2JEA A; 3U1K A; 4AM3 A; 3H1C A; 2JE6 B; 5JEA E; 3GME A; 3M7N D; 5C0X E; 2JEA B; 5K36 D; 4IFD A; 2C38 B; 2PO1 B; 3KRN A; 4IFD B; 4OO1 B; 1E3P A; 1OYS A; 3CDJ A; 2NN6 F; 1UDO A; 4OO1 E; 4IFD E; 2NN6 C; 5K36 A; 2PO2 A; 3L7Z A; 2PNZ A; 5K36 B; 2PO0 A; 2BR2 A; 3L7Z B; 1E3H A; 4BA1 A; 4AIM A; 2NN6 D; 2PO0 B; 2BR2 B; 4AID A; 3M85 D; 5JEA C; 2BA0 G; #chains in the Genus database with same CATH topology 1RR9 A; 2BA1 G; 3K17 A; 2A2D A; 1KVK A; 2WW4 A; 5IWA E; 1XMQ I; 2C37 A; 3WU6 A; 4K0K I; 1H72 C; 4LF4 I; 1XNR I; 2UUB I; 2PO2 B; 3PRY A; 3GCM A; 3NZK A; 2PNL A; 1XMQ E; 4K0K E; 4LF4 E; 1XNR E; 2UUB E; 5BR8 I; 4DUY I; 1QZR A; 2OI2 A; 4DPX A; 4MU0 A; 2BM1 A; 3P3C A; 2PNM A; 4DR6 I; 5DRP A; 1EI1 A; 1N36 I; 5BR8 E; 5C0X C; 4DUY E; 3P76 A; 5DNX A; 4IZJ D; 4B3S I; 1UEK A; 2WP8 B; 1N36 E; 2Z5B A; 4DV5 I; 4GQU A; 4DV0 I; 2JEB A; 3GLL A; 4LF9 I; 2EFG A; 2UXB E; 3QT7 A; 3QT5 A; 5C0X D; 4B3S E; 1Z0B A; 2Z5C B; 4IZK B; 4DV5 E; 4DV0 E; 2O1T A; 1Z0G A; 4LF9 E; 1UDS A; 3HKM A; 4DV4 I; 2BM0 A; 4LFC I; 4R1F A; 4IZJ A; 3LTO A; 4MU4 A; 2GO4 A; 2NN6 E; 1OYP A; 4DV4 E; 1ZM4 A; 3PYF A; 4U3D A; 4LFC E; 5C0X A; 5DRQ A; 1J5E I; 3PYE A; 4USK A; 1Z0C A; 1ZM3 A; 1XNQ I; 3ZZU A; 1J5E E; 1S4E A; 1U2R A; 3U1K A; 4X64 I; 4LF8 I; 3H1C A; 3GME A; 1P42 A; 1XNQ E; 2GO3 A; 5C0X E; 4UT4 A; 4X64 E; 4Z7C A; 4JI3 I; 4LF8 E; 1Z0E A; 1B62 A; 4YHH I; 4JI3 E; 4IZJ B; 2IOQ A; 3PYG A; 4YHH E; 3H4L A; 4JV5 I; 4HXZ A; 4I3H A; 2PNZ A; 3OTO I; 4FWD A; 3JAM Q; 4JV5 E; 1DAR A; 3J81 Q; 5K36 B; 2JT2 A; 1HR0 I; 1WUU A; 4HY1 A; 3OTO E; 3J80 Q; 2R3V A; 4QNJ A; 4EMD A; 4FN5 A; 1HR0 E; 1ELO A; 5JEA C; 4DV6 I; 4N3O A; 1Z5B A; 2O1W A; 4DV6 E; 1I94 I; 1PKP A; 5LMU I; 3ZM7 A; 1IBM I; 2AE8 A; 3ZKB A; 1I94 E; 1NZ0 A; 4FW7 A; 4B3T I; 2IOP A; 4YY3 I; 5LMU E; 1IBM E; 1Z0V A; 1NHJ A; 4IFD C; 2PNZ B; 4USM A; 4B3T E; 4YY3 E; 4DUZ I; 5C0X F; 4OX9 I; 4HYM A; 5GMD A; 4GKJ I; 3D4J A; 5FWK A; 2WP8 A; 2BA0 D; 4DUZ E; 4OX9 E; 1N0U A; 4GKJ E; 3B78 A; 4DR5 I; 5L3J A; 1IBL I; 2Z5C A; 4IZK A; 2CVE A; 2ZM6 I; 2DEI A; 4KHP I; 2CZ9 A; 4ZVI A; 4DXL A; 4DR5 E; 3CDI A; 1IBL E; 2ZM6 E; 4KHP E; 3Q1Q A; 4AQY I; 1XHK A; 3B4T A; 4LOM A; 3V5R A; 4AQY E; 2GQ0 A; 1A6F A; 2CGE A; 4MYU A; 1XMO I; 4DR3 I; 1NHI A; 4FW6 A; 4JI8 E; 1N32 I; 2UXB I; 2HK2 A; 4JG4 A; 3UHM A; 1Z5C A; 5JEA B; 4DV2 I; 2E5L I; 3F0N A; 4LCG A; 5K36 C; 1XMO E; 4DR3 E; 1N32 E; 1OYR A; 2VQF I; 3PS1 A; 4PRX A; 3LNU A; 4DV2 E; 2E5L E; 2JE6 B; 2VF3 A; 1HNW I; 1RRE A; 3P3E A; 2VQF E; 4DR2 I; 5K36 D; 1N0V C; 5FLX Q; 3WU5 A; 1HNW E; 1HNZ I; 4LFA I; 4DR2 E; 2UU9 I; 4IFD B; 1FWL A; 1HNZ E; 2DEJ A; 3CDJ A; 4LFA E; 2UU9 E; 1KTV A; 1OJ4 A; 5K36 A; 4NXM I; 4DR7 I; 1ZM2 A; 4FW9 A; 5EL9 A; 1S16 A; 4NXM E; 2UXD I; 5A2Q Q; 4DR7 E; 2V8P A; 4X65 I; 1MG7 A; 1H73 A; 4PU9 A; 3M85 D; 2J7K A; 2UXD E; 2IER A; 4X65 E; 2O1V A; 4LF7 I; 1VIS A; 1ZM9 A; 4LF7 E; 2E1R A; 3HUL A; 3J7A G; 4OZE A; 4DPT A; 2VQE I; 2A2C A; 3JAM C; 3J81 C; 4JI7 I; 4OO1 C; 4UTG A; 1MU5 A; 4JI2 I; 2VQE E; 2WNR A; 2BV3 A; 1Y6Z A; 3J80 C; 4JI7 E; 2C39 A; 4ED4 A; 4KQV A; 4LCH A; 4JI2 E; 4OO1 D; 4FW5 A; 2HFU A; 4JI0 I; 3Q6N A; 3QT6 A; 1EA6 A; 4Z7Y A; 4HAC A; 4XTJ A; 4JI0 E; 5JEA D; 3M7N G; 1RHY A; 2X36 A; 4P7A A; 1R6M A; 2ZBK B; 3V2U C; 2C38 A; 3K85 A; 2PO1 A; 4OO1 A; 2UUC I; 4J3D A; 4X62 I; 4WUD A; 5DNL A; 3QT8 A; 1FNM A; 3T1Y I; 2UUC E; 5JEA A; 2WNR B; 4X62 E; 5K36 F; 4IFD D; 2C39 B; 3K1J A; 3T1Y E; 2BA1 D; 2UXC I; 2JE6 A; 4BA2 B; 2F1D A; 3B82 A; 1Z0W A; 2AJ4 A; 3CWV A; 4HAC B; 2V34 A; 4AM3 A; 5JEA E; 2V2Q A; 2UXC E; 1XXE A; 1Y4S A; 3ZZ0 A; 2GS8 A; 4JI1 I; 3J7A M; 2JEA B; 4WUB A; 4MQY A; 1NHH A; 4IFD A; 1Z0T A; 5IT9 Q; 4JI1 E; 4NXN I; 4JI8 I; 4X66 E; 2HHH I; 2C38 B; 2PO1 B; 4FWH A; 3KRN A; 4OO1 B; 3ZKD A; 4NXN E; 4JYA I; 2V2Z A; 2HHH E; 4PRV A; 4IFD E; 2NN6 C; 3Q6M A; 4FWG A; 4JYA E; 1YH8 A; 4DU7 A; 2X7I A; 2O1U A; 4LFB I; 5ELW A; 2Q2E B; 4DV3 I; 3L7Z B; 2HFS A; 1E3H A; 2NPF A; 4BA1 A; 4AIM A; 2NN6 D; 4DV1 I; 1B63 A; 2PO0 B; 4LFB E; 1FKA E; 2BR2 B; 3P3G A; 5FLX C; 4DV3 E; 5DRR A; 4DV1 E; 5DRO A; 4DR6 E; 1USU A; 1Z5A A; 4GKK I; 1HNX I; 4NBQ A; 1USV A; 4U3B A; 2NN6 A; 2R42 A; 4ISA A; 4MU3 A; 3WU4 A; 4OO1 F; 4GKK E; 1KKH A; 1HNX E; 2C37 B; 1KIJ A; 2ZIT A; 4JI6 I; 4B3M I; 1Y60 A; 4DPW A; 1Y4U A; 5JEA F; 2XEX A; 1UDN A; 5A2Q C; 4LPF A; 5K36 E; 4BA1 B; 4JI6 E; 4B3M E; 4JI5 I; 1YHC A; 4MDT A; 1FJG I; 3LPS A; 2HKE A; 4JI5 E; 3DD6 A; 3PYD A; 3HJC A; 4OKG A; 1FJG E; 2Z5B B; 4URL A; 4FW4 A; 2JEB B; 4P52 A; 4IFD F; 4DR1 I; 4DPY A; 2NN6 B; 1ZXN A; 2LJP A; 1PVG A; 2CG9 A; 2O3Z A; 4DU8 A; 3M85 G; 1IBK I; 1UDQ A; 2HK3 A; 4JI4 I; 3GON A; 4DR1 E; 1FI4 A; 1ZXM A; 4FW3 A; 1K47 A; 1H7U A; 1IBK E; 1BKN A; 4JI4 E; 4M1K A; 5EKW A; 4DR4 I; 2VES A; 2J65 A; 1R6L A; 4BA2 A; 2HKJ A; 4DV7 I; 5C0X B; 1D6T A; 3T1H I; 4DR4 E; 3WU3 A; 4QNK A; 4MYT A; 4DV7 E; 2JEA A; 3P06 A; 3T1H E; 4LF5 I; 3M7N D; 1HK7 A; 4RPF A; 5LMN I; 5LL6 R; 4LF5 E; 1N33 I; 3PS3 A; 1Y5Y A; 1H74 A; 3M6A A; 1N34 I; 2UUA I; 5LMN E; 1E3P A; 4MU1 A; 1FWK A; 1N33 E; 1OYS A; 4DPU A; 2NN6 F; 2F4V I; 1UDO A; 1N34 E; 2UUA E; 3PS2 A; 4B3R I; 1Z59 A; 4OO1 E; 3ZZT A; 3B8H A; 2PO2 A; 2F4V E; 4LCF A; 3L7Z A; 4B3R E; 3U1Y A; 2Z5E A; 2IES A; 2PO0 A; 1H7S A; 2BR2 A; 2V2V A; 4WUC A; 4IS9 A; 4X66 I; 4LF6 I; 4AID A; 1VI7 A; 5IT9 C; 2BA0 G; 5GME A; 1MX0 A; 1PIE A; 4LF6 E; 5IWA I; #chains in the Genus database with same CATH homology 2BA1 G; 4NBQ A; 2NN6 A; 2C37 A; 4OO1 F; 2C37 B; 2PO2 B; 3GCM A; 4OO1 C; 4IFD C; 2PNZ B; 5JEA F; 2WNR A; 1UDN A; 5C0X F; 5K36 E; 2C39 A; 4BA1 B; 5C0X C; 2WP8 A; 4OO1 D; 2BA0 D; 2WP8 B; 2JEB A; 3GLL A; 3DD6 A; 5JEA D; 5C0X D; 3M7N G; 3CDI A; 2JEB B; 4IFD F; 1R6M A; 1UDS A; 2NN6 B; 2C38 A; 3HKM A; 3M85 G; 4OO1 A; 1UDQ A; 2PO1 A; 3B4T A; 2NN6 E; 1OYP A; 5JEA A; 2WNR B; 5C0X A; 5K36 F; 4IFD D; 1R6L A; 2C39 B; 4BA2 A; 5JEA B; 5C0X B; 5K36 C; 2BA1 D; 2JE6 A; 4BA2 B; 1OYR A; 2JEA A; 3U1K A; 4AM3 A; 3H1C A; 2JE6 B; 5JEA E; 3GME A; 3M7N D; 5C0X E; 2JEA B; 5K36 D; 4IFD A; 2C38 B; 2PO1 B; 3KRN A; 4IFD B; 4OO1 B; 1E3P A; 1OYS A; 3CDJ A; 2NN6 F; 1UDO A; 4OO1 E; 4IFD E; 2NN6 C; 5K36 A; 2PO2 A; 3L7Z A; 2PNZ A; 5K36 B; 2PO0 A; 2BR2 A; 3L7Z B; 1E3H A; 4BA1 A; 4AIM A; 2NN6 D; 2PO0 B; 2BR2 B; 4AID A; 3M85 D; 5JEA C; 2BA0 G;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
